File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5e/9d3564aae62e57586eebe9a872d478/.command.log
Size
13.5 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONREPORT_WORKFLOW:FUSIONREPORT (aih-tih-sc-176637-R1_B23WHYVLT4_1)
Attempt

Content

View in new tab 
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-8900cb43-4dca-49ac-a290-1d176a2e0012/bb/b9dd0d6df869a3d0edd9f161adc899/dummy_file_fusioncatcher.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5e/9d3564aae62e57586eebe9a872d478/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/03/feea69a06cb657d0b8398e624b3221/aih-tih-sc-176637-R1_B23WHYVLT4_1.arriba.fusions.filtered_pass_only.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5e/9d3564aae62e57586eebe9a872d478/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/fusion_report_db
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/59/a64eaf50cb0fc70633484862a1b8f0/aih-tih-sc-176637-R1_B23WHYVLT4_1.starfusion.starfusion.fusion_predictions.filtered_pass_only.tsv
==> STAGING COMPLETE (6 inputs)

Running application...
FRS2--LYZ
starfusion
arriba
BTAF1--TNKS2
starfusion
arriba
PTPRH--ACTN1
starfusion
arriba
FSIP1--AC013652.1
starfusion
arriba
WWOX--FTO
starfusion
arriba
C19orf47--BLVRB
starfusion
arriba
ABCA12--FN1
starfusion
C22orf46--FHOD3
starfusion
arriba
AC005839.1--ZNF280D
starfusion
arriba
ELMO2--SLC13A3
starfusion
arriba
MYH9--TXN2
starfusion
arriba
RAB4A--MDM4
starfusion
arriba
JPT2--CRAMP1
starfusion
arriba
SSH2--MYO18A
starfusion
arriba
ESR1--SCEL
starfusion
PTBP3--HSDL2
starfusion
BCL2--AC079760.2
starfusion
HAVCR2--EPB41L4A
starfusion
COL1A1--SLC45A4
starfusion
TLK2P1--AC110079.1
starfusion
MIGA2--PHYHD1
starfusion
arriba
NOCT--LINC02617
starfusion
TMEM94--TOGARAM1
starfusion
arriba
MBTD1--ZNF280D
starfusion
arriba
VKORC1L1--AUTS2
starfusion
arriba
ZNF280D--MBTD1
starfusion
arriba
TLK2--AC240565.1
starfusion
GRIP1--SCIMP
starfusion
arriba
ZMYM4--ZNF362
starfusion
arriba
PMPCA--PNPLA7
starfusion
arriba
MIR4713HG--GLDN
starfusion
ESR1--ARMT1
starfusion
NFATC2IP--SBK1
starfusion
arriba
TTC3--SLF1
starfusion
RPS6KB1--VMP1
starfusion
VTCN1--VTCN1
arriba
Metazoa_SRP--VTCN1
arriba
STX16--NPEPL1
arriba
ATP9A--BOLA2P1
arriba
ATP9A--AP000894.1
arriba
MYOF--CEP55
arriba
MYOF--FFAR4
arriba
NOCT--AC109927.1
arriba
TVP23C--CDRT4
arriba
SNRPC--AL451165.1
arriba
SNRPC--AL139100.1
arriba
AC005993.1--RGS6
arriba
PCDHA4--PCDHAC1
arriba
PCDHA4--PCDHAC2
arriba
PCDHA4--PCDHA13
arriba
SNX25--LINC02427
arriba
AC092807.3--DDAH1
arriba
MED7--EPB41L4A
arriba
CTNND2--Y_RNA
arriba
CTNND2--HOXB1
arriba
ATP9A--AP000894.4
arriba
KLRC4--KLRK1
arriba
USP6NL--ECHDC3
arriba
USP6NL--PROSER2
arriba
ATP13A3--CCSER1
arriba
EML3--TPCN2
arriba
EML3--AP003071.2
arriba
HSDL2--RPS10P3
arriba
HSDL2--AL353572.4
arriba

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Processing FRS2--LYZ:   0%|          | 0/64 [00:00<?, ?it/s]
Processing FRS2--LYZ:   2%|▏         | 1/64 [00:00<00:06,  9.23it/s]
Processing BTAF1--TNKS2:   2%|▏         | 1/64 [00:00<00:06,  9.23it/s]
Processing BTAF1--TNKS2:   3%|▎         | 2/64 [00:00<00:06,  9.46it/s]
Processing PTPRH--ACTN1:   3%|▎         | 2/64 [00:00<00:06,  9.46it/s]
Processing PTPRH--ACTN1:   5%|▍         | 3/64 [00:00<00:06,  9.54it/s]
Processing FSIP1--AC013652.1:   5%|▍         | 3/64 [00:00<00:06,  9.54it/s]
Processing FSIP1--AC013652.1:   6%|▋         | 4/64 [00:00<00:06,  9.58it/s]
Processing WWOX--FTO:   6%|▋         | 4/64 [00:00<00:06,  9.58it/s]        
Processing WWOX--FTO:   8%|▊         | 5/64 [00:00<00:06,  9.60it/s]
Processing C19orf47--BLVRB:   8%|▊         | 5/64 [00:00<00:06,  9.60it/s]
Processing C19orf47--BLVRB:   9%|▉         | 6/64 [00:00<00:06,  9.62it/s]
Processing ABCA12--FN1:   9%|▉         | 6/64 [00:00<00:06,  9.62it/s]    
Processing ABCA12--FN1:  11%|█         | 7/64 [00:00<00:05,  9.62it/s]
Processing C22orf46--FHOD3:  11%|█         | 7/64 [00:00<00:05,  9.62it/s]
Processing C22orf46--FHOD3:  12%|█▎        | 8/64 [00:00<00:05,  9.63it/s]
Processing AC005839.1--ZNF280D:  12%|█▎        | 8/64 [00:00<00:05,  9.63it/s]
Processing AC005839.1--ZNF280D:  14%|█▍        | 9/64 [00:00<00:05,  9.63it/s]
Processing ELMO2--SLC13A3:  14%|█▍        | 9/64 [00:00<00:05,  9.63it/s]     
Processing ELMO2--SLC13A3:  16%|█▌        | 10/64 [00:01<00:05,  9.64it/s]
Processing MYH9--TXN2:  16%|█▌        | 10/64 [00:01<00:05,  9.64it/s]    
Processing MYH9--TXN2:  17%|█▋        | 11/64 [00:01<00:05,  9.64it/s]
Processing RAB4A--MDM4:  17%|█▋        | 11/64 [00:01<00:05,  9.64it/s]
Processing RAB4A--MDM4:  19%|█▉        | 12/64 [00:01<00:05,  9.64it/s]
Processing JPT2--CRAMP1:  19%|█▉        | 12/64 [00:01<00:05,  9.64it/s]
Processing JPT2--CRAMP1:  20%|██        | 13/64 [00:01<00:05,  9.64it/s]
Processing SSH2--MYO18A:  20%|██        | 13/64 [00:01<00:05,  9.64it/s]
Processing SSH2--MYO18A:  22%|██▏       | 14/64 [00:01<00:05,  9.64it/s]
Processing ESR1--SCEL:  22%|██▏       | 14/64 [00:01<00:05,  9.64it/s]  
Processing ESR1--SCEL:  23%|██▎       | 15/64 [00:01<00:05,  9.64it/s]
Processing PTBP3--HSDL2:  23%|██▎       | 15/64 [00:01<00:05,  9.64it/s]
Processing PTBP3--HSDL2:  25%|██▌       | 16/64 [00:01<00:04,  9.64it/s]
Processing BCL2--AC079760.2:  25%|██▌       | 16/64 [00:01<00:04,  9.64it/s]
Processing BCL2--AC079760.2:  27%|██▋       | 17/64 [00:01<00:04,  9.64it/s]
Processing HAVCR2--EPB41L4A:  27%|██▋       | 17/64 [00:01<00:04,  9.64it/s]
Processing HAVCR2--EPB41L4A:  28%|██▊       | 18/64 [00:01<00:04,  9.64it/s]
Processing COL1A1--SLC45A4:  28%|██▊       | 18/64 [00:01<00:04,  9.64it/s] 
Processing COL1A1--SLC45A4:  30%|██▉       | 19/64 [00:01<00:04,  9.64it/s]
Processing TLK2P1--AC110079.1:  30%|██▉       | 19/64 [00:01<00:04,  9.64it/s]
Processing TLK2P1--AC110079.1:  31%|███▏      | 20/64 [00:02<00:04,  9.64it/s]
Processing MIGA2--PHYHD1:  31%|███▏      | 20/64 [00:02<00:04,  9.64it/s]     
Processing MIGA2--PHYHD1:  33%|███▎      | 21/64 [00:02<00:04,  9.62it/s]
Processing NOCT--LINC02617:  33%|███▎      | 21/64 [00:02<00:04,  9.62it/s]
Processing NOCT--LINC02617:  34%|███▍      | 22/64 [00:02<00:04,  9.63it/s]
Processing TMEM94--TOGARAM1:  34%|███▍      | 22/64 [00:02<00:04,  9.63it/s]
Processing TMEM94--TOGARAM1:  36%|███▌      | 23/64 [00:02<00:04,  9.63it/s]
Processing MBTD1--ZNF280D:  36%|███▌      | 23/64 [00:02<00:04,  9.63it/s]  
Processing MBTD1--ZNF280D:  38%|███▊      | 24/64 [00:02<00:04,  9.63it/s]
Processing VKORC1L1--AUTS2:  38%|███▊      | 24/64 [00:02<00:04,  9.63it/s]
Processing VKORC1L1--AUTS2:  39%|███▉      | 25/64 [00:02<00:04,  9.63it/s]
Processing ZNF280D--MBTD1:  39%|███▉      | 25/64 [00:02<00:04,  9.63it/s] 
Processing ZNF280D--MBTD1:  41%|████      | 26/64 [00:02<00:03,  9.62it/s]
Processing TLK2--AC240565.1:  41%|████      | 26/64 [00:02<00:03,  9.62it/s]
Processing TLK2--AC240565.1:  42%|████▏     | 27/64 [00:02<00:03,  9.62it/s]
Processing GRIP1--SCIMP:  42%|████▏     | 27/64 [00:02<00:03,  9.62it/s]    
Processing GRIP1--SCIMP:  44%|████▍     | 28/64 [00:02<00:03,  9.62it/s]
Processing ZMYM4--ZNF362:  44%|████▍     | 28/64 [00:02<00:03,  9.62it/s]
Processing ZMYM4--ZNF362:  45%|████▌     | 29/64 [00:03<00:03,  9.63it/s]
Processing PMPCA--PNPLA7:  45%|████▌     | 29/64 [00:03<00:03,  9.63it/s]
Processing PMPCA--PNPLA7:  47%|████▋     | 30/64 [00:03<00:03,  9.63it/s]
Processing MIR4713HG--GLDN:  47%|████▋     | 30/64 [00:03<00:03,  9.63it/s]
Processing MIR4713HG--GLDN:  48%|████▊     | 31/64 [00:03<00:03,  9.63it/s]
Processing ESR1--ARMT1:  48%|████▊     | 31/64 [00:03<00:03,  9.63it/s]    
Processing ESR1--ARMT1:  50%|█████     | 32/64 [00:03<00:03,  9.64it/s]
Processing NFATC2IP--SBK1:  50%|█████     | 32/64 [00:03<00:03,  9.64it/s]
Processing NFATC2IP--SBK1:  52%|█████▏    | 33/64 [00:03<00:03,  9.64it/s]
Processing TTC3--SLF1:  52%|█████▏    | 33/64 [00:03<00:03,  9.64it/s]    
Processing TTC3--SLF1:  53%|█████▎    | 34/64 [00:03<00:03,  9.64it/s]
Processing RPS6KB1--VMP1:  53%|█████▎    | 34/64 [00:03<00:03,  9.64it/s]
Processing RPS6KB1--VMP1:  55%|█████▍    | 35/64 [00:03<00:03,  9.64it/s]
Processing VTCN1--VTCN1:  55%|█████▍    | 35/64 [00:03<00:03,  9.64it/s] 
Processing VTCN1--VTCN1:  56%|█████▋    | 36/64 [00:03<00:02,  9.64it/s]
Processing Metazoa_SRP--VTCN1:  56%|█████▋    | 36/64 [00:03<00:02,  9.64it/s]
Processing Metazoa_SRP--VTCN1:  58%|█████▊    | 37/64 [00:03<00:02,  9.64it/s]
Processing STX16--NPEPL1:  58%|█████▊    | 37/64 [00:03<00:02,  9.64it/s]     
Processing STX16--NPEPL1:  59%|█████▉    | 38/64 [00:03<00:02,  9.64it/s]
Processing ATP9A--BOLA2P1:  59%|█████▉    | 38/64 [00:03<00:02,  9.64it/s]
Processing ATP9A--BOLA2P1:  61%|██████    | 39/64 [00:04<00:02,  9.64it/s]
Processing ATP9A--AP000894.1:  61%|██████    | 39/64 [00:04<00:02,  9.64it/s]
Processing ATP9A--AP000894.1:  62%|██████▎   | 40/64 [00:04<00:02,  9.64it/s]
Processing MYOF--CEP55:  62%|██████▎   | 40/64 [00:04<00:02,  9.64it/s]      
Processing MYOF--CEP55:  64%|██████▍   | 41/64 [00:04<00:02,  9.64it/s]
Processing MYOF--FFAR4:  64%|██████▍   | 41/64 [00:04<00:02,  9.64it/s]
Processing MYOF--FFAR4:  66%|██████▌   | 42/64 [00:04<00:02,  9.63it/s]
Processing NOCT--AC109927.1:  66%|██████▌   | 42/64 [00:04<00:02,  9.63it/s]
Processing NOCT--AC109927.1:  67%|██████▋   | 43/64 [00:04<00:02,  9.63it/s]
Processing TVP23C--CDRT4:  67%|██████▋   | 43/64 [00:04<00:02,  9.63it/s]   
Processing TVP23C--CDRT4:  69%|██████▉   | 44/64 [00:04<00:02,  9.63it/s]
Processing SNRPC--AL451165.1:  69%|██████▉   | 44/64 [00:04<00:02,  9.63it/s]
Processing SNRPC--AL451165.1:  70%|███████   | 45/64 [00:04<00:01,  9.63it/s]
Processing SNRPC--AL139100.1:  70%|███████   | 45/64 [00:04<00:01,  9.63it/s]
Processing SNRPC--AL139100.1:  72%|███████▏  | 46/64 [00:04<00:01,  9.63it/s]
Processing AC005993.1--RGS6:  72%|███████▏  | 46/64 [00:04<00:01,  9.63it/s] 
Processing AC005993.1--RGS6:  73%|███████▎  | 47/64 [00:04<00:01,  9.62it/s]
Processing PCDHA4--PCDHAC1:  73%|███████▎  | 47/64 [00:04<00:01,  9.62it/s] 
Processing PCDHA4--PCDHAC1:  75%|███████▌  | 48/64 [00:04<00:01,  9.63it/s]
Processing PCDHA4--PCDHAC2:  75%|███████▌  | 48/64 [00:04<00:01,  9.63it/s]
Processing PCDHA4--PCDHAC2:  77%|███████▋  | 49/64 [00:05<00:01,  9.63it/s]
Processing PCDHA4--PCDHA13:  77%|███████▋  | 49/64 [00:05<00:01,  9.63it/s]
Processing PCDHA4--PCDHA13:  78%|███████▊  | 50/64 [00:05<00:01,  9.63it/s]
Processing SNX25--LINC02427:  78%|███████▊  | 50/64 [00:05<00:01,  9.63it/s]
Processing SNX25--LINC02427:  80%|███████▉  | 51/64 [00:05<00:01,  9.63it/s]
Processing AC092807.3--DDAH1:  80%|███████▉  | 51/64 [00:05<00:01,  9.63it/s]
Processing AC092807.3--DDAH1:  81%|████████▏ | 52/64 [00:05<00:01,  9.63it/s]
Processing MED7--EPB41L4A:  81%|████████▏ | 52/64 [00:05<00:01,  9.63it/s]   
Processing MED7--EPB41L4A:  83%|████████▎ | 53/64 [00:05<00:01,  9.63it/s]
Processing CTNND2--Y_RNA:  83%|████████▎ | 53/64 [00:05<00:01,  9.63it/s] 
Processing CTNND2--Y_RNA:  84%|████████▍ | 54/64 [00:05<00:01,  9.63it/s]
Processing CTNND2--HOXB1:  84%|████████▍ | 54/64 [00:05<00:01,  9.63it/s]
Processing CTNND2--HOXB1:  86%|████████▌ | 55/64 [00:05<00:00,  9.63it/s]
Processing ATP9A--AP000894.4:  86%|████████▌ | 55/64 [00:05<00:00,  9.63it/s]
Processing ATP9A--AP000894.4:  88%|████████▊ | 56/64 [00:05<00:00,  9.63it/s]
Processing KLRC4--KLRK1:  88%|████████▊ | 56/64 [00:05<00:00,  9.63it/s]     
Processing KLRC4--KLRK1:  89%|████████▉ | 57/64 [00:05<00:00,  9.62it/s]
Processing USP6NL--ECHDC3:  89%|████████▉ | 57/64 [00:05<00:00,  9.62it/s]
Processing USP6NL--ECHDC3:  91%|█████████ | 58/64 [00:06<00:00,  9.62it/s]
Processing USP6NL--PROSER2:  91%|█████████ | 58/64 [00:06<00:00,  9.62it/s]
Processing USP6NL--PROSER2:  92%|█████████▏| 59/64 [00:06<00:00,  9.62it/s]
Processing ATP13A3--CCSER1:  92%|█████████▏| 59/64 [00:06<00:00,  9.62it/s]
Processing ATP13A3--CCSER1:  94%|█████████▍| 60/64 [00:06<00:00,  9.63it/s]
Processing EML3--TPCN2:  94%|█████████▍| 60/64 [00:06<00:00,  9.63it/s]    
Processing EML3--TPCN2:  95%|█████████▌| 61/64 [00:06<00:00,  9.62it/s]
Processing EML3--AP003071.2:  95%|█████████▌| 61/64 [00:06<00:00,  9.62it/s]
Processing EML3--AP003071.2:  97%|█████████▋| 62/64 [00:06<00:00,  9.62it/s]
Processing HSDL2--RPS10P3:  97%|█████████▋| 62/64 [00:06<00:00,  9.62it/s]  
Processing HSDL2--RPS10P3:  98%|█████████▊| 63/64 [00:06<00:00,  9.62it/s]
Processing HSDL2--AL353572.4:  98%|█████████▊| 63/64 [00:06<00:00,  9.62it/s]
Processing HSDL2--AL353572.4: 100%|██████████| 64/64 [00:06<00:00,  9.63it/s]
Processing HSDL2--AL353572.4: 100%|██████████| 64/64 [00:06<00:00,  9.63it/s]
cat: fusion_report_db/DB-timestamp.txt: No such file or directory